WoS İndeksli Yayınlar Koleksiyonu

Permanent URI for this collectionhttps://hdl.handle.net/20.500.12573/394

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Now showing 1 - 10 of 23
  • Conference Object
    Bioinformatics Analysis of Antifungal Mechanisms in Serratia Fonticola: Protein-Protein Interaction with Botrytis Cinerea BAG1 and Genome-Encoded Enzyme Reportoire
    (Wiley, 2025) Bozkurt, E. B.; Baysal, O.; Marzec-Grzadziel, A.; Silme, R. S.; Can, A.; Belen, I. N.; Korkut, A.
  • Conference Object
  • Conference Object
  • Article
    An Extension of Lucas's Theorem
    (indian Nat Sci Acad, 2025-10-31) Cinkir, Zubeyir; Ozturkalan, Aysegul
    We give elementary proofs of some congruence criteria to compute binomial coefficients modulo a prime number. These criteria are analogues to the symmetry property of binomial coefficients. We give extended version of Lucas's Theorem by using those criteria. We give applications of these criteria by describing a method to derive identities and congruences involving sums of binomial coefficients.
  • Article
    Developing a Label Propagation Approach for Cancer Subtype Classification Problem
    (Tubitak Scientific & Technological Research Council Turkey, 2022-01-01) Guner, Pinar; Bakir-Gungor, Burcu; Coskun, Mustafa
    Cancer is a disease in which abnormal cells grow uncontrollably and invade other tissues. Several types of cancer have various subtypes with different clinical and biological implications. Based on these differences, treatment methods need to be customized. The identification of distinct cancer subtypes is an important problem in bioinformatics, since it can guide future precision medicine applications. In order to design targeted treatments, bioinformatics methods attempt to discover common molecular pathology of different cancer subtypes. Along this line, several computational methods have been proposed to discover cancer subtypes or to stratify cancer into informative subtypes. However, existing works do not consider the sparseness of data (genes having low degrees) and result in an ill-conditioned solution. To address this shortcoming, in this paper, we propose an alternative unsupervised method to stratify cancer patients into subtypes using applied numerical algebra techniques. More specifically, we applied a label propagation based approach to stratify somatic mutation profiles of colon, head and neck, uterine, bladder, and breast tumors. We evaluated the performance of our method by comparing it to the baseline methods. Extensive experiments demonstrate that our approach highly renders tumor classification tasks by largely outperforming the state-of-the-art unsupervised and supervised approaches.
  • Article
    Sustainable Stabilization of Peat Soil with Hybrid Geopolymer Jet Grout Columns
    (Springer Int Publ A.G., 2025-10-15) Yalcin, Hakan; Erol, Aykut; Kaya, Zulkuf; Cadir, Cenk Cuma; Uncuoglu, Erdal; Akin, Muge K.
    Peat soils present severe challenges in geotechnical engineering due to their low shear strength, high water content, and aggressive chemical environments such as sulfate exposure. While cement-based jet grouting (JG) is widely used, it entails high carbon emissions and energy consumption. Hybrid geopolymer jet grout columns (HGJGCs) are presented in this work as a viable and sustainable alternative. Unlike conventional geopolymer studies that rely on pre-cured molds later exposed to aggressive environments, this research simulates realistic field conditions by injecting fresh geopolymer directly into sulfate-rich peat, where early-age durability and strength are critical. To address early strength limitations commonly seen in aggressive situations, a tiny amount of cement was added to the fly ash/GGBFS-based combination. Crucially, there is no need for high heat because the mechanism cures at room temperature. Physical model testing, laboratory-scale jet grouting, and performance comparisons with conventional JGCs were all carried out. Results show that HGJGCs increased the bearing capacity of peat by 5.5 times, improved compressive strength (5.3-5.7 MPa), and reduced settlement more effectively than JGCs. Additionally, CO2 emissions were reduced by 25.14% due to lower binder-related emissions and energy demand. This work shows that hybrid geopolymer systems are a viable, low-carbon substitute for peat stabilization because they can function well in real-world, chemically demanding situations.
  • Article
    Citation - WoS: 1
    Citation - Scopus: 1
    Interaction of Inula Viscosa (L.) Aiton with IBA1 via Rosmarinic Acid and Rutin: Insights from Computational Models and Biological Effects
    (Wiley-VCH verlag GmbH, 2025-10-29) Aktas Pepe, Nihan; Acar, Busra; Ceylan Ekiz, Yagmur; Senol, Ayse Merve; Semiz, Gurkan; Sen, Alaattin; Celik Turgut, Gurbet
    Inula viscosa (L.) Aiton is a traditional medicinal plant extensively utilized in Mediterranean nations for the treatment of rheumatic pain, inflammatory disorders, diabetes, anemia, and cancer. This study further explored its anti-inflammatory mechanisms through the highest components, chlorogenic acid, rosmarinic acid, and rutin, on the expression of the ionized calcium-binding adapter molecule 1 (Iba1) on monocyte-derived macrophage-like cells. Iba1 is known to contribute pathogenesis of diverse inflammatory diseases. HPLC analysis identified 13 major phenolic compounds, with rosmarinic acid, chlorogenic acid, and rutin as major components. The aqueous extract of the plant and its major components exhibited dose-dependent antiproliferative activity on pTHP-1, RAW264.7, and PCS-201-012 cells. Immunofluorescence staining revealed a significant reduction in Iba1 protein expression, which is associated with inflammation, at the high dose of I. viscosa and rutin. Molecular docking studies indicated that rosmarinic acid and rutin had the strongest predicted interactions with Iba1, with docking scores of -12.403 and -12.301 kcal/mol and MM/GBSA binding energies of -64.47 and -84.20 kcal/mol, respectively. I. visoca and its major components were observed to significantly suppress iNOS activity in LPS-stimulated cells; these findings were also supported by RT-PCR results. Treatment with the high dose of I. viscosa resulted in 9.45% necrotic cells and caused cell cycle arrest in the S phase (59.2 +/- 5.23%). This suggests that it may potentially reduce the proliferation of activated macrophages. In the fibroblast migration assays, the relative wound closure rate was found to be significant 27.06 +/- 18.09% at the low dose of I. viscosa and 31.59 +/- 22.42% at the high dose of I. viscosa. Although the relatively low wound closure rate limits tissue repair, it may benefit chronic wounds and fibrosis by suppressing excessive cell proliferation and inflammation. These results suggest that I. viscosa is a promising natural source of bioactive compounds with potential applications in anti-inflammatory drug development.
  • Article
    Citation - WoS: 1
    Citation - Scopus: 1
    A Comprehensive Review on the Extraction and Recovery of Lithium from Primary and Secondary Sources: Advances Toward Battery-Grade Materials
    (Wiley, 2025-10-20) Top, Soner; Kursunoglu, Sait; Altiner, Mahmut
    Lithium-ion battery (LIB) technologies have become indispensable to modern energy systems, driving global demand for high-purity lithium compounds. This review focuses on lithium recovery and purification strategies for battery-grade lithium carbonate (Li2CO3) and lithium hydroxide (LiOH), addressing both primary sources (brines and minerals) and secondary sources (waste materials). Industrially established processes, such as evaporation-based brine treatment and conventional metallurgical methods, are discussed alongside emerging techniques, including membrane separation, solvent extraction, and CO2-assisted precipitation. Particular attention is given to lithium precipitation mechanisms, the behaviour of co-existing ions during extraction, and the specific quality requirements for cathode material synthesis. By evaluating process scalability, environmental impact, and product purity, this review provides a comprehensive understanding of current practices and future directions. Additionally, it highlights the growing importance of lithium in the context of accelerating electric vehicle (EV) adoption, underscoring the bright and expanding future of the lithium industry.
  • Conference Object
    An Innovative Probiotic, Ln-AGA58, Demonstrates Immunosuppressive Effects in Treating Multiple Sclerosis
    (Wiley, 2025) Ozen, M. B.; Bozkurt, E. B.; Ortakci, F.; Sen, A.; Acar, O. Ozgun
  • Conference Object
    Aurora B Inhibition Amplifies Cisplatin-Induced Apoptosis in DLD-1 Cells
    (Wiley, 2025) Ozsoy, E. R.; Turk, S. Sari